About Me
I am a Computer Science Ph.D. candidate at Indiana University Bloomington. I am currently advised by Dr. Kun Huang from IU School of Medicine. Before moving to IU, I spent one year studying Electrical and Computer Engineering at The Ohio State University. I received my B.S. in Physics from Fudan University in 2016.
My research interests lies in the area of biomedical informatics, where I utilize machine learning algorithms to solve biomedical problems. My main focus is on omics data analysis and medical imaging data analysis. I am currently interested in developing deep learning algorithms for understanding different omics data and effectively extracting biological insights.
Preprints
Diagnostic Evidence GAuge of Single cells (DEGAS): A flexible deep-transfer learning framework for prioritizing cells in relation to disease
Travis S Johnson, Y Yu Christina, Zhi Huang, Siwen Xu, Tongxin Wang, Chuanpeng Dong, Wei Shao, Mohammed Abu Zaid, Xiaoqing Huang, Yijie Wang et al. bioRxiv. [paper] [code]
Publications
MOGONET integrates multi-omics data using graph convolutional networks allowing patient classification and biomarker identification
Tongxin Wang*, Wei Shao*, Zhi Huang, Haixu Tang, Jie Zhang, Zhengming Ding, and Kun Huang. Nature Communications (IF = 12.1) 2021. [paper] [code]
TSUNAMI: translational bioinformatics tool suite for network analysis and mining
Zhi Huang, Zhi Han, Tongxin Wang, Wei Shao, Shunian Xiang, Paul Salama, Maher Rizkalla, Kun Huang, and Jie Zhang. Genomics, Proteomics & Bioinformatics 2021. [paper] [code] [website]
Towards fair cross-domain adaptation via generative learning
Tongxin Wang, Zhengming Ding, Wei Shao, Haixu Tang, and Kun Huang. IEEE/CVF Winter Conference on Applications of Computer Vision (WACV) 2021. [paper]
Development and interpretation of a pathomics-based model for the prediction of microsatellite instability in colorectal cancer
Rui Cao, Fan Yang, Si-Cong Ma, Li Liu, Yu Zhao, Yan Li, De-Hua Wu, Tongxin Wang, Wei-Jia Lu, Wei-Jing Cai et al. Theranostics (IF = 8.6) 2020. [paper]
Multi-task multi-modal learning for joint diagnosis and prognosis of human cancers
Wei Shao, Tongxin Wang, Liang Sun, Tianhan Dong, Zhi Han, Zhi Huang, Jie Zhang, Daoqiang Zhang, and Kun Huang. Medical Image Analysis (IF = 11.1) 2020. [paper]
Microsatellite instability prediction of uterine corpus endometrial carcinoma based on H&E histology whole-slide imaging
Tongxin Wang*, Weijia Lu*, Fan Yang*, Li Liu, Zhongyi Dong, Weimin Tang, Jia Chang, Wenjing Huan, Kun Huang, and Jianhua Yao. IEEE International Symposium on Biomedical Imaging (ISBI) 2020. [paper]
BERMUDA: a novel deep transfer learning method for single-cell RNA sequencing batch correction reveals hidden high-resolution cellular subtypes
Tongxin Wang, Travis S Johnson, Wei Shao, Zixiao Lu, Bryan R Helm, Jie Zhang, and Kun Huang. Genome Biology (IF = 14.0) 2019. [paper] [code]
Generalized gene co-expression analysis via subspace clustering using low-rank representation
Tongxin Wang, Jie Zhang, and Kun Huang. BMC Bioinformatics 2019. [paper] [code]
Topological methods for visualization and analysis of high dimensional single-cell RNA sequencing data
Tongxin Wang, Travis Johnson, Jie Zhang, and Kun Huang. Pacific Symposium on Biocomputing (PSB) 2019 (oral). [paper] [demo]
LAmbDA: label ambiguous domain adaptation dataset integration reduces batch effects and improves subtype detection
Travis S Johnson, Tongxin Wang, Zhi Huang, Christina Y Yu, Yi Wu, Yatong Han, Yan Zhang, Kun Huang, and Jie Zhang. Bioinformatics 2019. [paper] [code]
Diagnosis-guided multi-modal feature selection for prognosis prediction of lung squamous cell carcinoma
Wei Shao, Tongxin Wang, Zhi Huang, Jun Cheng, Zhi Han, Daoqiang Zhang, and Kun Huang. International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI) 2019. [paper]
Integrative analysis of pathological images and multi-dimensional genomic data for early-stage cancer prognosis Wei Shao, Zhi Han, Jun Cheng, Liang Cheng, Tongxin Wang, Liang Sun, Zixiao Lu, Jie Zhang, Daoqiang Zhang, and Kun Huang. IEEE Transactions on Medical Imaging (TMI) 2019. [paper]
[* denotes equal contribution]
Last Updated: 06/22/2021 by Tongxin Wang.
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